BLASTP 2.2.18 [Mar-02-2008]


Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer, 
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997), 
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs",  Nucleic Acids Res. 25:3389-3402.

Reference for compositional score matrix adjustment: Altschul, Stephen F., 
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.

Query= 0301.0002.p
         (261 letters)

Database: pfamseq 
           9,421,015 sequences; 3,060,696,203 total letters

Searching..................................................done



                                                                 Score    E
Sequences producing significant alignments:                      (bits) Value

Q9RRR7.1 Q9RRR7_DEIRA Sensor protein EC=2.7.13.3                       70   3e-10
A4Y418.1 A4Y418_SHEPC Transcriptional regulator, Fis family / DN...    69   4e-10
A1RMW5.1 A1RMW5_SHESW DNA-binding protein Fis / transcriptional ...    69   4e-10
A0LPQ9.1 A0LPQ9_SYNFM Sensor protein EC=2.7.13.3                       69   4e-10
Q2W5A6.1 Q2W5A6_MAGMM Sensor protein EC=2.7.13.3                       68   7e-10

>Q9RRR7.1 Q9RRR7_DEIRA Sensor protein EC=2.7.13.3
          Length = 744

 Score = 69.7 bits (169), Expect = 3e-10,   Method: Compositional matrix adjust.
 Identities = 32/77 (41%), Positives = 50/77 (64%)

Query: 184 KHLGLILNSVAAGIFGLDTQGRIFFINREGADMLGYAPAELIGRTFAGQVHHIHGDGSRY 243
           + + L+L S   GIFGLD  G   F+N   +++LGY+ +EL+G+    ++HH H DG+ +
Sbjct: 375 RFMALLLTSAGEGIFGLDRDGNNTFVNPAASELLGYSVSELLGQPSHAKLHHHHADGTPH 434

Query: 244 QKIESPIAQTLQDGRTR 260
              E PI+QTL+DG+ R
Sbjct: 435 LLSECPISQTLRDGQQR 451


>A4Y418.1 A4Y418_SHEPC Transcriptional regulator, Fis family / DNA-binding
           protein Fis
          Length = 488

 Score = 68.9 bits (167), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 36/82 (43%), Positives = 45/82 (54%), Gaps = 4/82 (4%)

Query: 183 DKHL----GLILNSVAAGIFGLDTQGRIFFINREGADMLGYAPAELIGRTFAGQVHHIHG 238
           DKH      L+LN+V  GI+G D  G   FIN     M G+  AEL+G+      HH H 
Sbjct: 12  DKHFLPENQLLLNAVGEGIYGFDLNGNAVFINPAAERMTGWKNAELLGKNIHNCHHHSHA 71

Query: 239 DGSRYQKIESPIAQTLQDGRTR 260
           DGS Y + + PI  TL+DG TR
Sbjct: 72  DGSHYPQEDCPIYNTLKDGITR 93


>A1RMW5.1 A1RMW5_SHESW DNA-binding protein Fis / transcriptional regulator,
           Fis family
          Length = 488

 Score = 68.9 bits (167), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 36/82 (43%), Positives = 45/82 (54%), Gaps = 4/82 (4%)

Query: 183 DKHL----GLILNSVAAGIFGLDTQGRIFFINREGADMLGYAPAELIGRTFAGQVHHIHG 238
           DKH      L+LN+V  GI+G D  G   FIN     M G+  AEL+G+      HH H 
Sbjct: 12  DKHFLPENQLLLNAVGEGIYGFDLNGNAVFINPAAERMTGWKNAELLGKNIHNCHHHSHA 71

Query: 239 DGSRYQKIESPIAQTLQDGRTR 260
           DGS Y + + PI  TL+DG TR
Sbjct: 72  DGSHYPQEDCPIYNTLKDGITR 93


>A0LPQ9.1 A0LPQ9_SYNFM Sensor protein EC=2.7.13.3
          Length = 1268

 Score = 68.9 bits (167), Expect = 4e-10,   Method: Compositional matrix adjust.
 Identities = 36/74 (48%), Positives = 43/74 (58%)

Query: 188 LILNSVAAGIFGLDTQGRIFFINREGADMLGYAPAELIGRTFAGQVHHIHGDGSRYQKIE 247
           LILNSV  GI GLD +GR  F+N     MLG+ PAELIGR      HH    G R+ + E
Sbjct: 760 LILNSVGEGILGLDVEGRHTFVNSAAMGMLGFEPAELIGRRGHDMYHHTRESGDRFPEEE 819

Query: 248 SPIAQTLQDGRTRS 261
            PI Q+ + GR  S
Sbjct: 820 CPIYQSYRSGRACS 833


>Q2W5A6.1 Q2W5A6_MAGMM Sensor protein EC=2.7.13.3
          Length = 860

 Score = 68.2 bits (165), Expect = 7e-10,   Method: Compositional matrix adjust.
 Identities = 31/71 (43%), Positives = 48/71 (67%)

Query: 184 KHLGLILNSVAAGIFGLDTQGRIFFINREGADMLGYAPAELIGRTFAGQVHHIHGDGSRY 243
           +H  LIL+S+  GI GLDT+G + F+N   ++MLG+AP E++G+     +HH H DGS+Y
Sbjct: 227 EHNNLILDSMGEGIIGLDTRGAVTFVNPAASEMLGFAPGEMLGQHLHPLIHHSHPDGSQY 286

Query: 244 QKIESPIAQTL 254
                P+++TL
Sbjct: 287 PSEHCPLSRTL 297


  Database: pfamseq
    Posted date:  Aug 5, 2010  3:22 PM
  Number of letters in database: 3,060,696,203
  Number of sequences in database:  9,421,015
  
Lambda     K      H
   0.317    0.139    0.425 

Gapped
Lambda     K      H
   0.267   0.0410    0.140 


Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 9421015
Number of Hits to DB: 1,584,892,648
Number of extensions: 62752524
Number of successful extensions: 143969
Number of sequences better than 1.0e-05: 81
Number of HSP's gapped: 144000
Number of HSP's successfully gapped: 81
Length of query: 261
Length of database: 3,060,696,203
Length adjustment: 133
Effective length of query: 128
Effective length of database: 1,807,701,208
Effective search space: 231385754624
Effective search space used: 231385754624
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 130 (54.7 bits)